Hi all,
I am working on the functional annotation of a de novo assembled transcriptome. This is my procedure:
Is this a good way to do GO functional annotation? Would you recommend me another protocol to do this?
I am working on the functional annotation of a de novo assembled transcriptome. This is my procedure:
- BLASTX search against Refseq non-redundant protein database.
- Top hit selection from Blast search.
- Top hit association bettwen RefSeq id and GO with a idmapping table provided by Georgetown university: ftp://ftp.pir.georgetown.edu/databases/idmapping/. (A transcript can be associated with several GO terms).
- For each GO term associated with a contig I search the parent of the term in AmiGO browser, then i count the coincidences and generate a pie graph for it.
Is this a good way to do GO functional annotation? Would you recommend me another protocol to do this?
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